Query psy10123
Match_columns 123
No_of_seqs 145 out of 1293
Neff 8.1
Searched_HMMs 46136
Date Fri Aug 16 18:29:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10123.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10123hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1584|consensus 99.9 8.4E-26 1.8E-30 168.9 1.6 93 1-105 195-287 (297)
2 PLN02164 sulfotransferase 99.9 4.5E-24 9.8E-29 164.1 3.8 95 1-106 239-338 (346)
3 PF00685 Sulfotransfer_1: Sulf 99.5 1.4E-14 3.1E-19 105.4 1.1 83 1-95 176-258 (267)
4 KOG1584|consensus 98.0 3.3E-06 7.1E-11 63.9 2.5 92 6-121 22-128 (297)
5 PLN02164 sulfotransferase 96.6 0.00088 1.9E-08 52.1 1.0 30 92-121 140-169 (346)
6 KOG3988|consensus 94.8 0.022 4.7E-07 43.5 2.2 28 1-28 240-267 (378)
7 PF09037 Sulphotransf: Stf0 su 94.7 0.02 4.2E-07 42.5 1.8 24 1-24 195-218 (245)
8 COG4424 Uncharacterized protei 87.2 0.61 1.3E-05 34.1 2.7 42 1-42 194-238 (250)
9 PF14069 SpoVIF: Stage VI spor 86.7 1.6 3.5E-05 26.9 4.0 30 7-36 32-61 (79)
10 PF02969 TAF: TATA box binding 81.1 2.1 4.5E-05 25.5 2.7 31 8-38 5-36 (66)
11 PF03484 B5: tRNA synthetase B 74.8 3.6 7.7E-05 24.3 2.5 30 12-41 8-37 (70)
12 COG4542 PduX Protein involved 72.5 5.9 0.00013 30.0 3.7 29 5-33 102-130 (293)
13 smart00874 B5 tRNA synthetase 72.1 5.6 0.00012 23.2 2.9 28 12-39 8-35 (71)
14 PF13318 DUF4089: Protein of u 56.9 21 0.00046 19.9 3.2 24 12-35 2-25 (50)
15 PF01498 HTH_Tnp_Tc3_2: Transp 54.7 18 0.00039 21.0 2.9 37 3-39 7-46 (72)
16 PF11952 DUF3469: Protein of u 53.6 12 0.00026 23.4 2.0 20 16-35 46-65 (87)
17 PF12631 GTPase_Cys_C: Catalyt 53.5 31 0.00068 20.4 3.8 30 4-33 41-70 (73)
18 smart00803 TAF TATA box bindin 51.4 24 0.00051 20.7 2.9 29 8-36 4-33 (65)
19 PF03672 UPF0154: Uncharacteri 50.4 25 0.00055 20.7 2.9 32 3-34 25-59 (64)
20 PF14821 Thr_synth_N: Threonin 50.3 28 0.00061 21.1 3.3 21 15-35 58-78 (79)
21 PRK11753 DNA-binding transcrip 47.4 8.9 0.00019 26.8 0.8 28 18-45 3-30 (211)
22 PF13443 HTH_26: Cro/C1-type H 45.7 8.1 0.00017 21.8 0.3 13 10-22 41-53 (63)
23 PF07498 Rho_N: Rho terminatio 45.6 41 0.00089 17.9 3.1 32 3-34 1-37 (43)
24 PF13833 EF-hand_8: EF-hand do 44.1 51 0.0011 17.6 3.5 29 10-38 8-37 (54)
25 cd08306 Death_FADD Fas-associa 41.9 50 0.0011 20.3 3.5 33 2-36 6-38 (86)
26 KOG3704|consensus 39.7 15 0.00033 28.2 1.1 21 2-22 268-288 (360)
27 PF06301 Lambda_Kil: Bacteriop 38.3 37 0.00079 18.4 2.1 20 11-33 10-29 (43)
28 TIGR00135 gatC glutamyl-tRNA(G 36.2 55 0.0012 20.2 3.1 28 9-36 3-30 (93)
29 PHA02591 hypothetical protein; 35.9 43 0.00094 20.7 2.4 21 11-33 61-81 (83)
30 PRK00034 gatC aspartyl/glutamy 35.9 56 0.0012 20.2 3.1 28 9-36 5-32 (95)
31 PF02750 Synapsin_C: Synapsin, 35.4 24 0.00052 25.6 1.4 15 69-83 111-125 (203)
32 KOG2098|consensus 35.2 24 0.00052 28.9 1.6 46 69-115 465-510 (591)
33 TIGR03070 couple_hipB transcri 34.3 41 0.00089 17.9 2.1 15 9-23 44-58 (58)
34 PRK09087 hypothetical protein; 33.1 84 0.0018 22.7 4.1 36 6-42 156-191 (226)
35 PF11390 FdsD: NADH-dependant 33.0 71 0.0015 18.6 3.0 28 8-35 2-30 (61)
36 PF09183 DUF1947: Domain of un 32.6 26 0.00057 20.7 1.1 24 5-28 7-30 (65)
37 PF06144 DNA_pol3_delta: DNA p 31.9 60 0.0013 21.7 3.0 36 6-41 127-162 (172)
38 PF11468 PTase_Orf2: Aromatic 31.5 82 0.0018 24.2 3.8 30 7-36 5-34 (292)
39 COG2255 RuvB Holliday junction 31.5 83 0.0018 24.5 3.8 31 6-36 184-214 (332)
40 PF15138 Syncollin: Syncollin 31.0 14 0.00031 24.0 -0.3 16 70-85 91-106 (112)
41 PHA01976 helix-turn-helix prot 30.7 29 0.00063 19.6 1.1 10 25-34 44-53 (67)
42 PF12554 MOZART1: Mitotic-spin 30.3 1E+02 0.0022 17.0 3.5 29 7-35 3-31 (48)
43 PF13413 HTH_25: Helix-turn-he 29.9 51 0.0011 19.0 2.0 15 8-22 44-58 (62)
44 KOG2833|consensus 29.9 92 0.002 24.6 3.9 35 8-42 127-161 (395)
45 PRK06620 hypothetical protein; 28.2 1.3E+02 0.0027 21.6 4.2 30 7-36 151-180 (214)
46 PF09862 DUF2089: Protein of u 28.0 44 0.00095 22.0 1.6 29 9-37 49-79 (113)
47 PF03869 Arc: Arc-like DNA bin 27.9 89 0.0019 17.2 2.7 29 6-34 13-41 (50)
48 COG4087 Soluble P-type ATPase 27.5 82 0.0018 21.6 2.9 18 6-23 53-70 (152)
49 PRK00080 ruvB Holliday junctio 27.0 1.2E+02 0.0026 23.0 4.2 31 6-36 183-213 (328)
50 PF09832 DUF2059: Uncharacteri 27.0 44 0.00096 18.9 1.4 36 7-42 1-36 (64)
51 TIGR00635 ruvB Holliday juncti 26.4 1.3E+02 0.0028 22.3 4.2 31 6-36 162-192 (305)
52 PF12844 HTH_19: Helix-turn-he 26.2 30 0.00065 19.4 0.6 14 10-23 42-55 (64)
53 COG0072 PheT Phenylalanyl-tRNA 26.2 72 0.0016 27.1 3.0 32 11-42 270-301 (650)
54 PF09424 YqeY: Yqey-like prote 25.9 1.1E+02 0.0023 20.8 3.4 31 3-33 71-101 (143)
55 PF05496 RuvB_N: Holliday junc 25.8 39 0.00085 25.1 1.2 30 6-35 182-211 (233)
56 cd05031 S-100A10_like S-100A10 24.6 1.5E+02 0.0033 18.0 3.7 28 8-35 32-60 (94)
57 PF08546 ApbA_C: Ketopantoate 24.0 1.9E+02 0.0041 18.3 4.2 30 3-32 38-67 (125)
58 cd01670 Death Death Domain: a 23.9 1.6E+02 0.0034 17.0 3.5 32 3-36 4-35 (79)
59 PRK08727 hypothetical protein; 23.8 1.7E+02 0.0036 21.2 4.3 31 6-36 165-195 (233)
60 PRK08084 DNA replication initi 23.8 1.6E+02 0.0036 21.2 4.2 30 7-36 171-200 (235)
61 KOG0028|consensus 23.6 1.4E+02 0.0029 21.2 3.5 29 10-38 126-154 (172)
62 cd02417 Peptidase_C39_likeA A 23.6 1.8E+02 0.0039 18.0 4.0 35 8-42 8-46 (121)
63 PF12728 HTH_17: Helix-turn-he 23.4 65 0.0014 17.2 1.6 25 12-38 4-28 (51)
64 PLN03025 replication factor C 23.2 1.7E+02 0.0036 22.2 4.3 36 6-42 161-196 (319)
65 TIGR03190 benz_CoA_bzdN benzoy 23.1 1.2E+02 0.0026 23.8 3.6 32 5-36 137-168 (377)
66 COG4086 Predicted secreted pro 22.4 1.7E+02 0.0037 22.5 4.1 37 4-42 211-247 (299)
67 PF07818 HCNGP: HCNGP-like pro 22.1 1.3E+02 0.0028 19.1 2.9 31 10-40 12-58 (96)
68 smart00530 HTH_XRE Helix-turn- 21.8 85 0.0018 15.5 1.9 11 24-34 38-48 (56)
69 PRK09616 pheT phenylalanyl-tRN 21.5 1E+02 0.0022 25.6 3.0 28 12-39 281-308 (552)
70 PF04664 OGFr_N: Opioid growth 21.2 40 0.00087 24.6 0.5 36 2-37 79-114 (213)
71 PRK09744 DNA-binding transcrip 20.9 50 0.0011 20.1 0.8 15 9-23 10-24 (75)
72 PF01381 HTH_3: Helix-turn-hel 20.7 37 0.0008 18.3 0.2 10 24-33 37-46 (55)
73 PF01726 LexA_DNA_bind: LexA D 20.6 1.3E+02 0.0028 17.4 2.6 38 3-40 3-43 (65)
74 PF09098 Dehyd-heme_bind: Quin 20.3 1.1E+02 0.0023 21.7 2.4 27 10-36 38-64 (167)
75 TIGR02263 benz_CoA_red_C benzo 20.1 1.5E+02 0.0033 23.3 3.6 32 5-36 141-172 (380)
76 PF05269 Phage_CII: Bacterioph 20.0 1.6E+02 0.0036 18.5 3.1 25 6-30 45-69 (91)
No 1
>KOG1584|consensus
Probab=99.91 E-value=8.4e-26 Score=168.91 Aligned_cols=93 Identities=20% Similarity=0.324 Sum_probs=80.0
Q ss_pred CchhhHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhhchhhhhhHHHhhhhcccccccccccccceEEecccCCC
Q psy10123 1 MLSVHQDLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKENRATNYELVIEINKENNLIDKEKCERGAFMRSGKIGGL 80 (123)
Q Consensus 1 ~Edlk~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fvRkG~vGdW 80 (123)
||||++||+.+|+|||+|||.++++|++++++.+.+|+.|+.+...|++.. +.+...++ ...|+|||.||||
T Consensus 195 YEdmk~dp~~~ikrlaeFLg~~~~~Ee~~~~~~~~~~~~~~~n~l~nle~n-----~~~~~~~~---~~~F~RKG~vGDW 266 (297)
T KOG1584|consen 195 YEDMKADPKGEIKKLAEFLGCPFTKEEEDKGVVHLSFELCSLNPLSNLEVN-----KTEKLLHK---ISPFFRKGEVGDW 266 (297)
T ss_pred HHHhhhCHHHHHHHHHHHhCCCCCHHHHhhhhHHHHHHHHhhccccCceec-----cccccccc---chhhhcCCCcccc
Confidence 999999999999999999999999999999999999999999988887653 22333333 5789999999999
Q ss_pred ccccccccccccCCCCccchhcCCC
Q psy10123 81 PVYVRDSVGHISNLPGRRFIKAHLP 105 (123)
Q Consensus 81 k~~ft~e~~~~~~~~~pr~i~~hl~ 105 (123)
|||||++|+++|| .+++.++.
T Consensus 267 Kn~~T~~~~ekfD----~~~eekm~ 287 (297)
T KOG1584|consen 267 KNYLTPEMNEKFD----KIYEEKME 287 (297)
T ss_pred cccCCHHHHHHHH----HHHHHHhc
Confidence 9999999999999 55554443
No 2
>PLN02164 sulfotransferase
Probab=99.89 E-value=4.5e-24 Score=164.06 Aligned_cols=95 Identities=16% Similarity=0.261 Sum_probs=74.9
Q ss_pred CchhhHhHHHHHHHHHhhcCCCCCHH-----HHHHHHHhcChHHHhhchhhhhhHHHhhhhcccccccccccccceEEec
Q psy10123 1 MLSVHQDLKSIIQRTGKFLDHPLSTP-----DILQLEDHLSFESMKENRATNYELVIEINKENNLIDKEKCERGAFMRSG 75 (123)
Q Consensus 1 ~Edlk~d~~~~v~ria~Flg~~~~~~-----~l~~iv~~~sfe~Mk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fvRkG 75 (123)
||||++|+.++|+|||+|||++++++ .++.|+++|||++||++.. |.........+ ... . ...|||||
T Consensus 239 YEDmk~D~~~~v~ria~FLG~~~s~ee~~~~~v~~ive~~SFe~Mk~~e~-n~~~~~~~~~~-~~~--~---~~~FfRKG 311 (346)
T PLN02164 239 YETMRADPLPYVKRLAEFMGYGFTAEEEEKGVVEKVVKLCSFETLKNLEA-NKGEKDREDRP-AVY--A---NSAYFRKG 311 (346)
T ss_pred HHHHHHhHHHHHHHHHHHhCCCCchhhcchHHHHHHHHHCCHHHHhhhHh-hcccccccccc-ccc--c---Ccceeecc
Confidence 89999999999999999999999876 7999999999999998743 43221000000 001 1 45799999
Q ss_pred ccCCCccccccccccccCCCCccchhcCCCC
Q psy10123 76 KIGGLPVYVRDSVGHISNLPGRRFIKAHLPL 106 (123)
Q Consensus 76 ~vGdWk~~ft~e~~~~~~~~~pr~i~~hl~~ 106 (123)
.||||+||||++|+++++ ++++..|..
T Consensus 312 ~vGdWkn~lt~e~~~r~d----~~~~ekl~g 338 (346)
T PLN02164 312 KVGDWQNYLTPEMAARID----GLMEEKFKG 338 (346)
T ss_pred CCCCCcccCCHHHHHHHH----HHHHHHhcC
Confidence 999999999999999999 777766653
No 3
>PF00685 Sulfotransfer_1: Sulfotransferase domain; InterPro: IPR000863 This family includes a range of sulphotransferase proteins including flavonyl 3-sulphotransferase, aryl sulphotransferase, alcohol sulphotransferase, oestrogen sulphotransferase and phenol-sulphating phenol sulphotransferase. These enzymes are responsible for the transfer of sulphate groups to specific compounds.; GO: 0008146 sulfotransferase activity; PDB: 3MGC_A 3MGB_A 3MG9_A 1G3M_B 1HY3_B 2QP4_A 3F3Y_C 1EFH_A 1OV4_A 1J99_A ....
Probab=99.46 E-value=1.4e-14 Score=105.42 Aligned_cols=83 Identities=20% Similarity=0.251 Sum_probs=67.2
Q ss_pred CchhhHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhhchhhhhhHHHhhhhcccccccccccccceEEecccCCC
Q psy10123 1 MLSVHQDLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKENRATNYELVIEINKENNLIDKEKCERGAFMRSGKIGGL 80 (123)
Q Consensus 1 ~Edlk~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fvRkG~vGdW 80 (123)
||||..||..+|.+|++|||++++++.++.++++++|++|+.....+.... .+.. ...++|+|.+|+|
T Consensus 176 YEdl~~dp~~~l~~I~~FLgl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~---~~~~~~~~~~~~W 243 (267)
T PF00685_consen 176 YEDLVADPEKELKRICDFLGLPFSDEPLDKIVEKSSFDNMRSKEARNKSKL---------SDGS---SSRFFRKGKSGRW 243 (267)
T ss_dssp HHHHHHSHHHHHHHHHHHTTSS--HHHHHHHHHHTSHHHHHHETTTSSTTS---------CTTT---TSTSSEET-STGG
T ss_pred chhhhhhhhHHHHHHHHHHhhccchhhhHHHHHhhhhhhhccccccccccc---------ccCC---cceeeeecccCcc
Confidence 899999999999999999999999999999999999999998755432110 0001 4679999999999
Q ss_pred ccccccccccccCCC
Q psy10123 81 PVYVRDSVGHISNLP 95 (123)
Q Consensus 81 k~~ft~e~~~~~~~~ 95 (123)
+++||+++.+.++..
T Consensus 244 ~~~l~~e~~~~i~~~ 258 (267)
T PF00685_consen 244 KNELSPEQIDRIERI 258 (267)
T ss_dssp GGTSBHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHH
Confidence 999999999999833
No 4
>KOG1584|consensus
Probab=98.02 E-value=3.3e-06 Score=63.92 Aligned_cols=92 Identities=20% Similarity=0.304 Sum_probs=59.1
Q ss_pred HhHHHHHHHHHhhc---------------CCCCCHHHHHHHHHhcChHHHhhchhhhhhHHHhhhhcccccccccccccc
Q psy10123 6 QDLKSIIQRTGKFL---------------DHPLSTPDILQLEDHLSFESMKENRATNYELVIEINKENNLIDKEKCERGA 70 (123)
Q Consensus 6 ~d~~~~v~ria~Fl---------------g~~~~~~~l~~iv~~~sfe~Mk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (123)
.+....+.++.+.+ |.+|-.+++..|++.+.++.-+.++... +.+
T Consensus 22 ~~~~~~~~~~~~~Fq~r~dDiiiaTyPKsGTTWlkel~~~i~~~~d~~~~~~~pL~~--------------------~~P 81 (297)
T KOG1584|consen 22 PKFLQALLRVQKHFQARPDDVIIATYPKSGTTWLQELTFLILNRGDFEKAKRHPLLE--------------------RNP 81 (297)
T ss_pred HHHHHHHHHHHhcCCCCCCCEEEEecCCCchHHHHHHHHHHHcCCCcccccCCchhh--------------------cCC
Confidence 35566777777733 4555688899999999887766543321 223
Q ss_pred eEEecccCCCccccccccccccCCCCccchhcCCCCCCCCcccCCCCcccc
Q psy10123 71 FMRSGKIGGLPVYVRDSVGHISNLPGRRFIKAHLPLRLLPKKLQDGSTKAK 121 (123)
Q Consensus 71 fvRkG~vGdWk~~ft~e~~~~~~~~~pr~i~~hl~~~~lp~~~~~~~~k~~ 121 (123)
|+.--.... .....++.. +.++||.++||||+++||+++++++|||.
T Consensus 82 ~~e~p~~e~--~~~~~~~~~--~l~SPRl~kTHlP~~lLp~s~~~~~cKvV 128 (297)
T KOG1584|consen 82 HLEVPFLEL--QLYGNDSAP--DLPSPRLFKTHLPFQLLPESLKESKCKVV 128 (297)
T ss_pred ceeeccccc--ccccccccc--cCCCCcceeccCChhhcchhhhcCCCcEE
Confidence 332211000 011112222 44599999999999999999999999985
No 5
>PLN02164 sulfotransferase
Probab=96.56 E-value=0.00088 Score=52.08 Aligned_cols=30 Identities=23% Similarity=0.423 Sum_probs=26.7
Q ss_pred cCCCCccchhcCCCCCCCCcccCCCCcccc
Q psy10123 92 SNLPGRRFIKAHLPLRLLPKKLQDGSTKAK 121 (123)
Q Consensus 92 ~~~~~pr~i~~hl~~~~lp~~~~~~~~k~~ 121 (123)
++.++||.|+||||+++||+++++++||++
T Consensus 140 l~~~~PRlikTHlp~~~lP~~i~~~~~KiI 169 (346)
T PLN02164 140 LKDKGNTLFSTHIPYGLLPDSVVKSGCKMV 169 (346)
T ss_pred hccCCCCeeEecCChhhCccccccCCceEE
Confidence 344789999999999999999999999975
No 6
>KOG3988|consensus
Probab=94.76 E-value=0.022 Score=43.46 Aligned_cols=28 Identities=25% Similarity=0.273 Sum_probs=26.4
Q ss_pred CchhhHhHHHHHHHHHhhcCCCCCHHHH
Q psy10123 1 MLSVHQDLKSIIQRTGKFLDHPLSTPDI 28 (123)
Q Consensus 1 ~Edlk~d~~~~v~ria~Flg~~~~~~~l 28 (123)
||.|...|.+.+++|..||+++|++..+
T Consensus 240 YEqLVlhPe~~mr~Il~FLdipw~d~vL 267 (378)
T KOG3988|consen 240 YEQLVLHPEEWMRRILKFLDIPWSDAVL 267 (378)
T ss_pred HHHHHhCHHHHHHHHHHHhCCCcHHHHH
Confidence 8999999999999999999999998765
No 7
>PF09037 Sulphotransf: Stf0 sulphotransferase; InterPro: IPR024628 Members of this family are essential for the biosynthesis of sulpholipid-1 in prokaryotes. They adopt a structure that belongs to the sulphotransferase superfamily, consisting of a single domain with a core four-stranded parallel beta-sheet flanked by alpha-helices []. ; PDB: 1TEX_B.
Probab=94.67 E-value=0.02 Score=42.53 Aligned_cols=24 Identities=17% Similarity=0.152 Sum_probs=21.6
Q ss_pred CchhhHhHHHHHHHHHhhcCCCCC
Q psy10123 1 MLSVHQDLKSIIQRTGKFLDHPLS 24 (123)
Q Consensus 1 ~Edlk~d~~~~v~ria~Flg~~~~ 24 (123)
||||.+|+..++.+|++|||++..
T Consensus 195 YEdL~~dp~~~~~~Vl~fLgv~~~ 218 (245)
T PF09037_consen 195 YEDLLADPQKTVARVLDFLGVDPP 218 (245)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS-GG
T ss_pred HHHHHhCHHHHHHHHHHHhCCCCc
Confidence 899999999999999999999653
No 8
>COG4424 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=87.17 E-value=0.61 Score=34.10 Aligned_cols=42 Identities=14% Similarity=0.064 Sum_probs=37.7
Q ss_pred CchhhHhHHHHHHHHHhhcCCCCC---HHHHHHHHHhcChHHHhh
Q psy10123 1 MLSVHQDLKSIIQRTGKFLDHPLS---TPDILQLEDHLSFESMKE 42 (123)
Q Consensus 1 ~Edlk~d~~~~v~ria~Flg~~~~---~~~l~~iv~~~sfe~Mk~ 42 (123)
||.|-+||-..|..+++.||++.. ...+++..+..|-|.|..
T Consensus 194 Ye~Lsadp~aava~~~ealgv~~p~a~~p~~a~qad~~s~eWv~R 238 (250)
T COG4424 194 YEVLSADPTAAVASVLEALGVDPPLAPAPMLARQADQRSDEWVDR 238 (250)
T ss_pred HHHHccCcHHHHHHHHHHhCCCCCCCcCchHHHhhhhhhHHHHHH
Confidence 899999999999999999999974 556888899999999876
No 9
>PF14069 SpoVIF: Stage VI sporulation protein F
Probab=86.73 E-value=1.6 Score=26.92 Aligned_cols=30 Identities=13% Similarity=0.330 Sum_probs=26.3
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 7 DLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 7 d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
..+..|+++|..+|.+++++..+.||+.--
T Consensus 32 ~vR~lIk~vs~~an~~Vs~~~ed~IV~~I~ 61 (79)
T PF14069_consen 32 KVRQLIKQVSQIANKPVSKEQEDQIVQAII 61 (79)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 467889999999999999999999998653
No 10
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=81.07 E-value=2.1 Score=25.49 Aligned_cols=31 Identities=13% Similarity=0.199 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhcCC-CCCHHHHHHHHHhcChH
Q psy10123 8 LKSIIQRTGKFLDH-PLSTPDILQLEDHLSFE 38 (123)
Q Consensus 8 ~~~~v~ria~Flg~-~~~~~~l~~iv~~~sfe 38 (123)
+.+.|+-+|+-+|+ +++++....+.+..++-
T Consensus 5 ~~esvk~iAes~Gi~~l~de~a~~La~dveyr 36 (66)
T PF02969_consen 5 SQESVKDIAESLGISNLSDEAAKALAEDVEYR 36 (66)
T ss_dssp -HHHHHHHHHHTT---B-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Confidence 46789999999999 68999988888877653
No 11
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=74.75 E-value=3.6 Score=24.34 Aligned_cols=30 Identities=23% Similarity=0.469 Sum_probs=22.1
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHhcChHHHh
Q psy10123 12 IQRTGKFLDHPLSTPDILQLEDHLSFESMK 41 (123)
Q Consensus 12 v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk 41 (123)
+.+|.++||.+++.+.+..+++++.|+.=.
T Consensus 8 ~~~i~~~lG~~i~~~~i~~~L~~lg~~~~~ 37 (70)
T PF03484_consen 8 LDKINKLLGIDISPEEIIKILKRLGFKVEK 37 (70)
T ss_dssp HHHHHHHHTS---HHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHCCCEEEE
Confidence 467888999999999999999999887544
No 12
>COG4542 PduX Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=72.52 E-value=5.9 Score=29.99 Aligned_cols=29 Identities=28% Similarity=0.383 Sum_probs=25.9
Q ss_pred hHhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q psy10123 5 HQDLKSIIQRTGKFLDHPLSTPDILQLED 33 (123)
Q Consensus 5 k~d~~~~v~ria~Flg~~~~~~~l~~iv~ 33 (123)
-+|+..++.-+|.|||.++++..+.+++-
T Consensus 102 TADl~At~~A~A~~l~~~l~es~iakLcv 130 (293)
T COG4542 102 TADLVATARATARFLGRELRESEIAKLCV 130 (293)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHh
Confidence 47999999999999999999999887764
No 13
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=72.14 E-value=5.6 Score=23.21 Aligned_cols=28 Identities=29% Similarity=0.442 Sum_probs=24.9
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHhcChHH
Q psy10123 12 IQRTGKFLDHPLSTPDILQLEDHLSFES 39 (123)
Q Consensus 12 v~ria~Flg~~~~~~~l~~iv~~~sfe~ 39 (123)
..++.++||.+++.+.+..++....|+.
T Consensus 8 ~~~i~~llG~~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 8 RERINRLLGLDLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHCCCeE
Confidence 5678889999999999999999998875
No 14
>PF13318 DUF4089: Protein of unknown function (DUF4089)
Probab=56.94 E-value=21 Score=19.88 Aligned_cols=24 Identities=13% Similarity=0.177 Sum_probs=21.0
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHhc
Q psy10123 12 IQRTGKFLDHPLSTPDILQLEDHL 35 (123)
Q Consensus 12 v~ria~Flg~~~~~~~l~~iv~~~ 35 (123)
|..+|.-||.+++++-...|+.+.
T Consensus 2 v~~~a~llgL~l~~~~r~~V~~n~ 25 (50)
T PF13318_consen 2 VDQMAALLGLPLDEEWRPGVVANF 25 (50)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHH
Confidence 678899999999999998888764
No 15
>PF01498 HTH_Tnp_Tc3_2: Transposase; InterPro: IPR002492 Transposase proteins are necessary for efficient DNA transposition. This family includes the amino-terminal region of Tc1, Tc1A, Tc1B and Tc2B transposases of Caenorhabditis elegans. The region encompasses the specific DNA binding and second DNA recognition domains as well as an amino-terminal region of the catalytic domain of Tc3 as described in []. Tc3 is a member of the Tc1/mariner family of transposable elements. This entry also includes histone-lysine N-methyltransferase SETMAR, which is a SET domain and mariner transposase fusion gene-containing protein. This histone methyltransferase has sequence-specific DNA-binding activity and recognises the 19-mer core of the 5'-terminal inverted repeats (TIRs) of the Hsmar1 element. This protein has DNA nicking activity, and has in vivo end joining activity and may mediate genomic integration of foreign DNA [, , , ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated, 0015074 DNA integration; PDB: 3K9K_B 3F2K_B 3K9J_B 1U78_A.
Probab=54.73 E-value=18 Score=21.04 Aligned_cols=37 Identities=11% Similarity=0.087 Sum_probs=20.9
Q ss_pred hhhHhHHHHHHHHHhhc---CCCCCHHHHHHHHHhcChHH
Q psy10123 3 SVHQDLKSIIQRTGKFL---DHPLSTPDILQLEDHLSFES 39 (123)
Q Consensus 3 dlk~d~~~~v~ria~Fl---g~~~~~~~l~~iv~~~sfe~ 39 (123)
...+|+..+...|+.-| |..++...+.+++....|-.
T Consensus 7 ~v~~~p~~s~~~i~~~l~~~~~~vS~~TI~r~L~~~g~~~ 46 (72)
T PF01498_consen 7 MVRRNPRISAREIAQELQEAGISVSKSTIRRRLREAGLKK 46 (72)
T ss_dssp ---------HHHHHHHT---T--S-HHHHHHHHHHT-EEE
T ss_pred HHHHCCCCCHHHHHHHHHHccCCcCHHHHHHHHHHcCccc
Confidence 35678889999999999 99999999999988876644
No 16
>PF11952 DUF3469: Protein of unknown function (DUF3469); InterPro: IPR021859 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 108 to 439 amino acids in length.
Probab=53.57 E-value=12 Score=23.39 Aligned_cols=20 Identities=10% Similarity=0.084 Sum_probs=17.1
Q ss_pred HhhcCCCCCHHHHHHHHHhc
Q psy10123 16 GKFLDHPLSTPDILQLEDHL 35 (123)
Q Consensus 16 a~Flg~~~~~~~l~~iv~~~ 35 (123)
-.|||+.|+++.+++|.+-+
T Consensus 46 ~~fLGC~Yp~~~m~~v~ema 65 (87)
T PF11952_consen 46 MEFLGCRYPPEVMEKVMEMA 65 (87)
T ss_pred HHHHhcCCCHHHHHHHHHHh
Confidence 46999999999999888754
No 17
>PF12631 GTPase_Cys_C: Catalytic cysteine-containing C-terminus of GTPase, MnmE; PDB: 1XZQ_A 1XZP_A 2GJ8_D 3GEH_A 3GEI_B 3GEE_A.
Probab=53.46 E-value=31 Score=20.41 Aligned_cols=30 Identities=13% Similarity=0.245 Sum_probs=23.6
Q ss_pred hhHhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q psy10123 4 VHQDLKSIIQRTGKFLDHPLSTPDILQLED 33 (123)
Q Consensus 4 lk~d~~~~v~ria~Flg~~~~~~~l~~iv~ 33 (123)
+-.|++.++..|++-+|...+++.++.|..
T Consensus 41 ~a~~L~~A~~~L~~ItG~~~~ediLd~IFs 70 (73)
T PF12631_consen 41 VAEDLREALESLGEITGEVVTEDILDNIFS 70 (73)
T ss_dssp HHHHHHHHHHHHHHHCTSS--HHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence 346888999999999999999999988853
No 18
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=51.42 E-value=24 Score=20.70 Aligned_cols=29 Identities=21% Similarity=0.173 Sum_probs=22.7
Q ss_pred HHHHHHHHHhhcCCC-CCHHHHHHHHHhcC
Q psy10123 8 LKSIIQRTGKFLDHP-LSTPDILQLEDHLS 36 (123)
Q Consensus 8 ~~~~v~ria~Flg~~-~~~~~l~~iv~~~s 36 (123)
|.+.|++||+=+|++ ++++..+.+.+...
T Consensus 4 p~~~i~ria~~~Gi~ris~~a~~~l~~~~e 33 (65)
T smart00803 4 PKETIKDVAESLGIGNLSDEAAKLLAEDVE 33 (65)
T ss_pred CHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence 567899999999988 78887666666554
No 19
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=50.35 E-value=25 Score=20.75 Aligned_cols=32 Identities=13% Similarity=0.116 Sum_probs=26.5
Q ss_pred hhhHhHH---HHHHHHHhhcCCCCCHHHHHHHHHh
Q psy10123 3 SVHQDLK---SIIQRTGKFLDHPLSTPDILQLEDH 34 (123)
Q Consensus 3 dlk~d~~---~~v~ria~Flg~~~~~~~l~~iv~~ 34 (123)
.|+++|+ ..|+.+..=.|-..|+..+..+...
T Consensus 25 ~l~~NPpine~mir~M~~QMG~kpSekqi~Q~m~~ 59 (64)
T PF03672_consen 25 QLKENPPINEKMIRAMMMQMGRKPSEKQIKQMMRS 59 (64)
T ss_pred HHHHCCCCCHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence 3667776 8899999999999999999888753
No 20
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=50.31 E-value=28 Score=21.08 Aligned_cols=21 Identities=10% Similarity=0.306 Sum_probs=17.2
Q ss_pred HHhhcCCCCCHHHHHHHHHhc
Q psy10123 15 TGKFLDHPLSTPDILQLEDHL 35 (123)
Q Consensus 15 ia~Flg~~~~~~~l~~iv~~~ 35 (123)
+..|+|-+++++.|..+++.+
T Consensus 58 l~~f~~~di~~~~L~~ii~~A 78 (79)
T PF14821_consen 58 LSPFLGDDIPEEELKEIIEKA 78 (79)
T ss_dssp HHHHCCCCS-HHHHHHHHHHH
T ss_pred HHHHHccCCCHHHHHHHHHHH
Confidence 467999999999999999864
No 21
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=47.44 E-value=8.9 Score=26.77 Aligned_cols=28 Identities=14% Similarity=0.277 Sum_probs=24.4
Q ss_pred hcCCCCCHHHHHHHHHhcChHHHhhchh
Q psy10123 18 FLDHPLSTPDILQLEDHLSFESMKENRA 45 (123)
Q Consensus 18 Flg~~~~~~~l~~iv~~~sfe~Mk~~~~ 45 (123)
.||.|++++.++.+++.+....+++...
T Consensus 3 ~~~~~~~~~~~~~l~~~~~~~~~~kg~~ 30 (211)
T PRK11753 3 VLGKPQTDPTLEWFLSHCHIHKYPAKST 30 (211)
T ss_pred cccCCCCHHHHHHHHhhCeEEEeCCCCE
Confidence 4899999999999999999888887654
No 22
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=45.68 E-value=8.1 Score=21.77 Aligned_cols=13 Identities=15% Similarity=0.340 Sum_probs=6.6
Q ss_pred HHHHHHHhhcCCC
Q psy10123 10 SIIQRTGKFLDHP 22 (123)
Q Consensus 10 ~~v~ria~Flg~~ 22 (123)
..+.+||.+||++
T Consensus 41 ~~l~~ia~~l~~~ 53 (63)
T PF13443_consen 41 DTLEKIAKALNCS 53 (63)
T ss_dssp HHHHHHHHHHT--
T ss_pred HHHHHHHHHcCCC
Confidence 4556666666654
No 23
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=45.58 E-value=41 Score=17.86 Aligned_cols=32 Identities=16% Similarity=0.003 Sum_probs=20.9
Q ss_pred hhhHhHHHHHHHHHhhcCCCC-C----HHHHHHHHHh
Q psy10123 3 SVHQDLKSIIQRTGKFLDHPL-S----TPDILQLEDH 34 (123)
Q Consensus 3 dlk~d~~~~v~ria~Flg~~~-~----~~~l~~iv~~ 34 (123)
||.+=....++.||.-+|++- + ++++..|+++
T Consensus 1 eL~~~~~~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~ 37 (43)
T PF07498_consen 1 ELKSMTLSELREIAKELGIEGYSKMRKQELIFAILKA 37 (43)
T ss_dssp HHHCS-HHHHHHHHHCTT-TTGCCS-HHHHHHHHHHH
T ss_pred CcccCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHHHH
Confidence 456667788999999999863 1 5556666554
No 24
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=44.10 E-value=51 Score=17.64 Aligned_cols=29 Identities=17% Similarity=0.130 Sum_probs=21.7
Q ss_pred HHHHHHHhhcCCC-CCHHHHHHHHHhcChH
Q psy10123 10 SIIQRTGKFLDHP-LSTPDILQLEDHLSFE 38 (123)
Q Consensus 10 ~~v~ria~Flg~~-~~~~~l~~iv~~~sfe 38 (123)
..++++..-+|.. ++++.+..++.....+
T Consensus 8 ~~~~~~l~~~g~~~~s~~e~~~l~~~~D~~ 37 (54)
T PF13833_consen 8 EEFRRALSKLGIKDLSEEEVDRLFREFDTD 37 (54)
T ss_dssp HHHHHHHHHTTSSSSCHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHhcccC
Confidence 4455666777999 9999999988876544
No 25
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=41.94 E-value=50 Score=20.29 Aligned_cols=33 Identities=15% Similarity=0.178 Sum_probs=25.4
Q ss_pred chhhHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 2 LSVHQDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 2 Edlk~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
+-+.+++....+++|+.|| +++..|+.|.+...
T Consensus 6 ~~i~~~lG~~Wk~laR~LG--lse~~Id~i~~~~~ 38 (86)
T cd08306 6 DVICENVGRDWRKLARKLG--LSETKIESIEEAHP 38 (86)
T ss_pred HHHHHHHhhhHHHHHHHcC--CCHHHHHHHHHHCC
Confidence 3455677788899999999 67888888876654
No 26
>KOG3704|consensus
Probab=39.72 E-value=15 Score=28.19 Aligned_cols=21 Identities=19% Similarity=0.178 Sum_probs=18.7
Q ss_pred chhhHhHHHHHHHHHhhcCCC
Q psy10123 2 LSVHQDLKSIIQRTGKFLDHP 22 (123)
Q Consensus 2 Edlk~d~~~~v~ria~Flg~~ 22 (123)
|-|..||.+++.|+-+|||..
T Consensus 268 erli~dPa~E~~rVqdFLgLk 288 (360)
T KOG3704|consen 268 ERLISDPAGELGRVQDFLGLK 288 (360)
T ss_pred ceeecCcHHHHHHHHHHhccc
Confidence 567899999999999999964
No 27
>PF06301 Lambda_Kil: Bacteriophage lambda Kil protein; InterPro: IPR010444 This family consists of several Bacteriophage lambda Kil protein like sequences. A cessation of division, followed by one or two fairly synchronous cell divisions in Escherichia coli is due to two genetically separable events: a temporary block of cell division and, at the same time, a block to the initiation of new rounds of DNA replication. The cell division block is a result of the transient expression of the lambda kil gene []. The lambda kil gene has been shown to be responsible for premature lysis on the addition of chloramphenicol between 15 and 20 min after thermal induction of a lambda prophage []. Induction of a lambda prophage causes the death of the host cell even in the absence of phage replication and lytic functions due to expression of functions from the lambda p(L) operon. The kil gene causes cell death and filamentation [].
Probab=38.25 E-value=37 Score=18.41 Aligned_cols=20 Identities=10% Similarity=0.102 Sum_probs=12.6
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHH
Q psy10123 11 IIQRTGKFLDHPLSTPDILQLED 33 (123)
Q Consensus 11 ~v~ria~Flg~~~~~~~l~~iv~ 33 (123)
.=..||.||| |++...++++
T Consensus 10 sK~~IA~flG---D~~mw~eA~e 29 (43)
T PF06301_consen 10 SKAAIARFLG---DEKMWSEANE 29 (43)
T ss_pred HHHHHHHHHc---cHHHHHHHHH
Confidence 3456899999 5555544443
No 28
>TIGR00135 gatC glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, C subunit. This model has been revised to remove the candidate sequence from Methanococcus jannaschii, now part of a related model.
Probab=36.24 E-value=55 Score=20.20 Aligned_cols=28 Identities=14% Similarity=0.188 Sum_probs=24.0
Q ss_pred HHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 9 KSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 9 ~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
...|++||...-..+++++++.++...+
T Consensus 3 ~~~v~~lA~La~L~l~eee~~~~~~~l~ 30 (93)
T TIGR00135 3 DEEVKHLAKLARLELSEEEAESFAGDLD 30 (93)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 4678999999999999999988887764
No 29
>PHA02591 hypothetical protein; Provisional
Probab=35.91 E-value=43 Score=20.67 Aligned_cols=21 Identities=5% Similarity=0.213 Sum_probs=13.5
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHH
Q psy10123 11 IIQRTGKFLDHPLSTPDILQLED 33 (123)
Q Consensus 11 ~v~ria~Flg~~~~~~~l~~iv~ 33 (123)
++.+||+.||++ .+.+.+.++
T Consensus 61 SqeqIA~~LGVs--qetVrKYL~ 81 (83)
T PHA02591 61 TVEKIASLLGVS--VRKVRRYLE 81 (83)
T ss_pred CHHHHHHHhCCC--HHHHHHHHh
Confidence 477888888864 444544444
No 30
>PRK00034 gatC aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed
Probab=35.87 E-value=56 Score=20.16 Aligned_cols=28 Identities=14% Similarity=0.286 Sum_probs=23.8
Q ss_pred HHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 9 KSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 9 ~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
...|++||...-+.++++.++.++...+
T Consensus 5 ~e~i~~la~La~l~l~~ee~~~~~~~l~ 32 (95)
T PRK00034 5 REEVKHLAKLARLELSEEELEKFAGQLN 32 (95)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 4679999999999999999888877653
No 31
>PF02750 Synapsin_C: Synapsin, ATP binding domain; InterPro: IPR020898 The synapsins are a family of neuron-specific phosphoproteins that coat synaptic vesicles and are involved in the binding between these vesicles and the cytoskeleton (including actin filaments). The family comprises 5 homologous proteins Ia, Ib, IIa, IIb and III. Synapsins I, II, and III are encoded by 3 different genes. The a and b isoforms of synapsin I and II are splice variants of the primary transcripts []. Synapsin I is mainly associated with regulation of neurotransmitter release from presynaptic neuron terminals []. Synapsin II, as well as being involved in neurotransmitter release, has a role in the synaptogenesis and synaptic plasticity responsible for long term potentiation []. Recent studies implicate synapsin III with a developmental role in neurite elongation and synapse formation that is distinct from the functions of synapsins I and II []. Structurally, synapsins are multidomain proteins, of which 3 domains are common to all the mammalian forms. The N-terminal `A' domain is ~30 residues long and contains a serine residue that serves as an acceptor site for protein kinase-mediated phosphorylation. This is followed by the `B' linker domain, which is ~80 residues long and is relatively poorly conserved. Domain `C' is the longest, spanning approximately 300 residues. This domain is highly conserved across all the synapsins (including those from Drosophila) and is possessed by all splice variants. The remaining six domains, D-I, are not shared by all the synapsins and differ both between the primary transcripts and the splice variants. This entry represent the ATP-grasp fold found in synapsins, which is responsible for Ca dependent ATP binding. ; PDB: 1PX2_A 1PK8_F 1AUV_B 1AUX_A 2P0A_A 1I7N_A 1I7L_A.
Probab=35.43 E-value=24 Score=25.62 Aligned_cols=15 Identities=27% Similarity=0.397 Sum_probs=12.8
Q ss_pred cceEEecccCCCccc
Q psy10123 69 GAFMRSGKIGGLPVY 83 (123)
Q Consensus 69 ~~fvRkG~vGdWk~~ 83 (123)
..|+|+++.|.||.-
T Consensus 111 kA~~R~sis~nWK~N 125 (203)
T PF02750_consen 111 KAYMRTSISGNWKAN 125 (203)
T ss_dssp EEEEEEESSSTSSTT
T ss_pred EEEEEcccccccccc
Confidence 469999999999943
No 32
>KOG2098|consensus
Probab=35.23 E-value=24 Score=28.92 Aligned_cols=46 Identities=9% Similarity=0.078 Sum_probs=32.6
Q ss_pred cceEEecccCCCccccccccccccCCCCccchhcCCCCCCCCcccCC
Q psy10123 69 GAFMRSGKIGGLPVYVRDSVGHISNLPGRRFIKAHLPLRLLPKKLQD 115 (123)
Q Consensus 69 ~~fvRkG~vGdWk~~ft~e~~~~~~~~~pr~i~~hl~~~~lp~~~~~ 115 (123)
...||.|.+|.|-||= .|+.-.=-.-.|.++..|+..+++=-...+
T Consensus 465 qRiIrTGRTGHWLNH~-KEHcLVG~KGNP~~~Nr~iD~DvIVaevRe 510 (591)
T KOG2098|consen 465 QRIIRTGRTGHWLNHG-KEHCLVGVKGNPQGFNRGLDCDVIVAEVRE 510 (591)
T ss_pred hhheecCccccccccC-cceeEeeeccChhhhccCCCcceeehhhhh
Confidence 4689999999999995 444444444667888888877766544433
No 33
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=34.31 E-value=41 Score=17.95 Aligned_cols=15 Identities=20% Similarity=0.047 Sum_probs=11.1
Q ss_pred HHHHHHHHhhcCCCC
Q psy10123 9 KSIIQRTGKFLDHPL 23 (123)
Q Consensus 9 ~~~v~ria~Flg~~~ 23 (123)
...+.+||++||+++
T Consensus 44 ~~~~~~i~~~lgv~l 58 (58)
T TIGR03070 44 LDKVLRVLDALGLEL 58 (58)
T ss_pred HHHHHHHHHHcCCCC
Confidence 456788888888764
No 34
>PRK09087 hypothetical protein; Validated
Probab=33.07 E-value=84 Score=22.75 Aligned_cols=36 Identities=11% Similarity=-0.019 Sum_probs=29.9
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhh
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKE 42 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~ 42 (123)
.+....+.+.++..|..++++.++-++++++ .+|+.
T Consensus 156 e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~-r~~~~ 191 (226)
T PRK09087 156 ALLSQVIFKLFADRQLYVDPHVVYYLVSRME-RSLFA 191 (226)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhh-hhHHH
Confidence 4567788899999999999999999999988 44544
No 35
>PF11390 FdsD: NADH-dependant formate dehydrogenase delta subunit FdsD; InterPro: IPR021074 FdsD is the delta subunit of the enzyme formate dehydrogenase. This subunit may play a role in maintaining the quaternary structure by means of electrostatic interactions with the other subunits []. The delta subunit is not involved in the active centre of the enzyme [].
Probab=33.04 E-value=71 Score=18.57 Aligned_cols=28 Identities=11% Similarity=0.274 Sum_probs=20.0
Q ss_pred HHHHHHHHHhhcCCCC-CHHHHHHHHHhc
Q psy10123 8 LKSIIQRTGKFLDHPL-STPDILQLEDHL 35 (123)
Q Consensus 8 ~~~~v~ria~Flg~~~-~~~~l~~iv~~~ 35 (123)
+.....+||.|++... .++.++.|.+|.
T Consensus 2 LI~MANQIa~ff~~~p~~~~a~~~va~Hi 30 (61)
T PF11390_consen 2 LIKMANQIAAFFESYPPEEEAVEGVANHI 30 (61)
T ss_pred HHHHHHHHHHHHccCCCHHHHHHHHHHHH
Confidence 4556788999988764 455677777775
No 36
>PF09183 DUF1947: Domain of unknown function (DUF1947); InterPro: IPR015266 Members of this entry are a set of hypothetical archaeal proteins. Their exact function has not, as yet, been defined. ; PDB: 1Q7H_A.
Probab=32.63 E-value=26 Score=20.75 Aligned_cols=24 Identities=13% Similarity=0.248 Sum_probs=13.6
Q ss_pred hHhHHHHHHHHHhhcCCCCCHHHH
Q psy10123 5 HQDLKSIIQRTGKFLDHPLSTPDI 28 (123)
Q Consensus 5 k~d~~~~v~ria~Flg~~~~~~~l 28 (123)
++|...-+.+|+.+.|++++.+.+
T Consensus 7 kKe~k~~~~k~~~~ygIdi~~~~v 30 (65)
T PF09183_consen 7 KKEIKEIKEKIKEKYGIDISGEKV 30 (65)
T ss_dssp HHHHHHHHHHHHT-TT---TT---
T ss_pred HHHHHHHHHHHHHHhCcCCCccce
Confidence 567788888888888888876554
No 37
>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2.7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.
Probab=31.86 E-value=60 Score=21.73 Aligned_cols=36 Identities=14% Similarity=0.063 Sum_probs=28.1
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHh
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMK 41 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk 41 (123)
.|....|.+.|+-.|+.++++.++.+++.+.-+.+.
T Consensus 127 ~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~ 162 (172)
T PF06144_consen 127 QELPRWIKERAKKNGLKIDPDAAQYLIERVGNDLSL 162 (172)
T ss_dssp TTHHHHHHHHHHHTT-EE-HHHHHHHHHHHTT-HHH
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhChHHHH
Confidence 477889999999999999999999999988665443
No 38
>PF11468 PTase_Orf2: Aromatic prenyltransferase Orf2; InterPro: IPR020965 This entry represents an aromatic prenyltransferase encoded by Orf2 from Streptomyces sp. strain CL190 []. In vivo Orf2 attaches a geranyl group to a 1,3,6,8-tetrahydroxynaphthalene-derived polyketide during naphterpin biosynthesis []. In vitro, Orf2 catalyses carbon-carbon based and carbon-oxygen based prenylation of hydroxyl-containing aromatic acceptors of synthetic, microbial and plant origin []. ; PDB: 1ZDY_A 1ZB6_A 1ZDW_A 1ZCW_A 2XM5_A 2XLQ_A 2XM7_A 2XLY_A.
Probab=31.48 E-value=82 Score=24.23 Aligned_cols=30 Identities=20% Similarity=0.261 Sum_probs=22.1
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 7 DLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 7 d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
.+...|++.|+-+|.+++++.++.|++.-.
T Consensus 5 ~~~~diee~A~~~~a~~~~~~V~pvL~af~ 34 (292)
T PF11468_consen 5 RFYSDIEETARALGAPYSRDKVWPVLSAFE 34 (292)
T ss_dssp HHHHHHHHHHHHCT----HHHHHHHHHHCH
T ss_pred HHHHHHHHHHHhhCCCCcHHHHHHHHHHHH
Confidence 456789999999999999999999998653
No 39
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=31.47 E-value=83 Score=24.51 Aligned_cols=31 Identities=19% Similarity=0.418 Sum_probs=26.9
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
+|+...|.|-|..|+++++++....|..+|-
T Consensus 184 ~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSR 214 (332)
T COG2255 184 EELEEIVKRSAKILGIEIDEEAALEIARRSR 214 (332)
T ss_pred HHHHHHHHHHHHHhCCCCChHHHHHHHHhcc
Confidence 5788999999999999999998888877763
No 40
>PF15138 Syncollin: Syncollin
Probab=31.00 E-value=14 Score=24.04 Aligned_cols=16 Identities=19% Similarity=0.185 Sum_probs=12.4
Q ss_pred ceEEecccCCCccccc
Q psy10123 70 AFMRSGKIGGLPVYVR 85 (123)
Q Consensus 70 ~fvRkG~vGdWk~~ft 85 (123)
.-+|+|+.|+|-|-.+
T Consensus 91 ~e~r~GiFg~WndaIs 106 (112)
T PF15138_consen 91 EEYRRGIFGDWNDAIS 106 (112)
T ss_pred HHHhcccccchhhhhh
Confidence 3479999999987553
No 41
>PHA01976 helix-turn-helix protein
Probab=30.74 E-value=29 Score=19.62 Aligned_cols=10 Identities=30% Similarity=0.478 Sum_probs=4.6
Q ss_pred HHHHHHHHHh
Q psy10123 25 TPDILQLEDH 34 (123)
Q Consensus 25 ~~~l~~iv~~ 34 (123)
.+.+.++.+.
T Consensus 44 ~~~l~~ia~~ 53 (67)
T PHA01976 44 LKTLLRLADA 53 (67)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 42
>PF12554 MOZART1: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR022214 This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 105 amino acids in length. There is a single completely conserved residue L that may be functionally important.
Probab=30.26 E-value=1e+02 Score=17.04 Aligned_cols=29 Identities=7% Similarity=0.135 Sum_probs=23.7
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhc
Q psy10123 7 DLKSIIQRTGKFLDHPLSTPDILQLEDHL 35 (123)
Q Consensus 7 d~~~~v~ria~Flg~~~~~~~l~~iv~~~ 35 (123)
.....+..|++.|+..+|.+.+.-.++-|
T Consensus 3 ~~~d~l~eiS~lLntgLd~etL~ici~L~ 31 (48)
T PF12554_consen 3 ETLDVLHEISDLLNTGLDRETLSICIELC 31 (48)
T ss_pred hHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence 34567889999999999999888777765
No 43
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=29.89 E-value=51 Score=18.97 Aligned_cols=15 Identities=13% Similarity=0.401 Sum_probs=11.6
Q ss_pred HHHHHHHHHhhcCCC
Q psy10123 8 LKSIIQRTGKFLDHP 22 (123)
Q Consensus 8 ~~~~v~ria~Flg~~ 22 (123)
.++.|++.|.+||.+
T Consensus 44 ~rg~lr~Ya~~Lgld 58 (62)
T PF13413_consen 44 ARGYLRKYARFLGLD 58 (62)
T ss_dssp HHHHHHHHHHHTT--
T ss_pred HHHHHHHHHHHhCcC
Confidence 478899999999976
No 44
>KOG2833|consensus
Probab=29.87 E-value=92 Score=24.58 Aligned_cols=35 Identities=6% Similarity=0.098 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhh
Q psy10123 8 LKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKE 42 (123)
Q Consensus 8 ~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~ 42 (123)
+..-|..||+++|++.+++++-+|...-|=..-|.
T Consensus 127 ~Aalv~alarly~l~~~~~els~iAR~GSGSACRS 161 (395)
T KOG2833|consen 127 FAALVLALARLYGLDDSPEELSRIARQGSGSACRS 161 (395)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHhccCchhhhh
Confidence 45668899999999999999999999887665554
No 45
>PRK06620 hypothetical protein; Validated
Probab=28.17 E-value=1.3e+02 Score=21.64 Aligned_cols=30 Identities=20% Similarity=0.017 Sum_probs=24.8
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 7 DLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 7 d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
+....+.+.+.--|+.++++.++-++++++
T Consensus 151 ~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~ 180 (214)
T PRK06620 151 LIKILIFKHFSISSVTISRQIIDFLLVNLP 180 (214)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcc
Confidence 345677788887899999999999999885
No 46
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=28.04 E-value=44 Score=22.00 Aligned_cols=29 Identities=14% Similarity=0.233 Sum_probs=24.4
Q ss_pred HHHHHHHHhhcCCCCCH--HHHHHHHHhcCh
Q psy10123 9 KSIIQRTGKFLDHPLST--PDILQLEDHLSF 37 (123)
Q Consensus 9 ~~~v~ria~Flg~~~~~--~~l~~iv~~~sf 37 (123)
++.++.||.-||++|+- ..++.|+++..+
T Consensus 49 rGnlKe~e~~lgiSYPTvR~rLd~ii~~lg~ 79 (113)
T PF09862_consen 49 RGNLKEMEKELGISYPTVRNRLDKIIEKLGY 79 (113)
T ss_pred cCCHHHHHHHHCCCcHHHHHHHHHHHHHhCC
Confidence 46789999999999974 458999998888
No 47
>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site. Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....
Probab=27.90 E-value=89 Score=17.18 Aligned_cols=29 Identities=14% Similarity=0.272 Sum_probs=22.4
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHh
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDH 34 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~ 34 (123)
.++...|+..|.-=|.+++.+.+..+-+.
T Consensus 13 ~~l~~~lk~~A~~~gRS~NsEIv~~L~~~ 41 (50)
T PF03869_consen 13 EELKEKLKERAEENGRSMNSEIVQRLEEA 41 (50)
T ss_dssp HHHHHHHHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence 46778889999999999998887776654
No 48
>COG4087 Soluble P-type ATPase [General function prediction only]
Probab=27.51 E-value=82 Score=21.64 Aligned_cols=18 Identities=22% Similarity=0.420 Sum_probs=15.6
Q ss_pred HhHHHHHHHHHhhcCCCC
Q psy10123 6 QDLKSIIQRTGKFLDHPL 23 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~ 23 (123)
.|..+.+.++|.|+|++.
T Consensus 53 gDr~gsl~~lae~~gi~~ 70 (152)
T COG4087 53 GDRKGSLVQLAEFVGIPV 70 (152)
T ss_pred CCcchHHHHHHHHcCCce
Confidence 367889999999999886
No 49
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=27.02 E-value=1.2e+02 Score=23.00 Aligned_cols=31 Identities=16% Similarity=0.418 Sum_probs=26.1
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
.+....+.+.+.-.++.++++.++.|+++|.
T Consensus 183 ~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~ 213 (328)
T PRK00080 183 EELEKIVKRSARILGVEIDEEGALEIARRSR 213 (328)
T ss_pred HHHHHHHHHHHHHcCCCcCHHHHHHHHHHcC
Confidence 3556778888888999999999999999985
No 50
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=26.95 E-value=44 Score=18.93 Aligned_cols=36 Identities=6% Similarity=0.092 Sum_probs=22.9
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhh
Q psy10123 7 DLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKE 42 (123)
Q Consensus 7 d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~ 42 (123)
|+...+..++..+...+|+++++.++..-+=..-++
T Consensus 1 d~~~~~~~~~~~y~~~ft~~El~~i~~FY~Sp~Gqk 36 (64)
T PF09832_consen 1 DPEKMIDQMAPIYAEHFTEEELDAILAFYESPLGQK 36 (64)
T ss_dssp -HHHHHHHHHHHHHHHS-HHHHHHHHHHHHSHHHHH
T ss_pred CHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCHHhHH
Confidence 455566667777777788888888877665444443
No 51
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=26.40 E-value=1.3e+02 Score=22.34 Aligned_cols=31 Identities=16% Similarity=0.375 Sum_probs=25.5
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
.+....+.++|.-.+..++++.++.++++|.
T Consensus 162 ~e~~~il~~~~~~~~~~~~~~al~~ia~~~~ 192 (305)
T TIGR00635 162 EELAEIVSRSAGLLNVEIEPEAALEIARRSR 192 (305)
T ss_pred HHHHHHHHHHHHHhCCCcCHHHHHHHHHHhC
Confidence 3567778888888899999999999988874
No 52
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=26.20 E-value=30 Score=19.37 Aligned_cols=14 Identities=21% Similarity=0.332 Sum_probs=8.0
Q ss_pred HHHHHHHhhcCCCC
Q psy10123 10 SIIQRTGKFLDHPL 23 (123)
Q Consensus 10 ~~v~ria~Flg~~~ 23 (123)
..+.+||.+||+++
T Consensus 42 ~~l~~i~~~~~v~~ 55 (64)
T PF12844_consen 42 STLKKIAEALGVSL 55 (64)
T ss_dssp HHHHHHHHHHTS-H
T ss_pred HHHHHHHHHhCCCH
Confidence 45666666666653
No 53
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=26.17 E-value=72 Score=27.15 Aligned_cols=32 Identities=22% Similarity=0.365 Sum_probs=28.0
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHhcChHHHhh
Q psy10123 11 IIQRTGKFLDHPLSTPDILQLEDHLSFESMKE 42 (123)
Q Consensus 11 ~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~ 42 (123)
.+.+|-++||.+++.+.+..++++..|.....
T Consensus 270 ~~~~i~~llG~~ls~eei~~iL~rLg~~~~~~ 301 (650)
T COG0072 270 RLERINRLLGLELSAEEIEKILKRLGFKVEVK 301 (650)
T ss_pred cHHHHHHHhCCCCCHHHHHHHHHHcCCeeEec
Confidence 36788899999999999999999999976654
No 54
>PF09424 YqeY: Yqey-like protein; InterPro: IPR019004 Putative protein of unknown function; the authentic protein is detected in highly purified mitochondria in high-throughput studies; YOR215C is not an essential gene. ; PDB: 1NG6_A.
Probab=25.90 E-value=1.1e+02 Score=20.79 Aligned_cols=31 Identities=16% Similarity=0.269 Sum_probs=19.1
Q ss_pred hhhHhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q psy10123 3 SVHQDLKSIIQRTGKFLDHPLSTPDILQLED 33 (123)
Q Consensus 3 dlk~d~~~~v~ria~Flg~~~~~~~l~~iv~ 33 (123)
||.......+.=|-.||...+|++.+..+|.
T Consensus 71 dlae~e~~Ei~iL~~yLP~~lseeEi~~~v~ 101 (143)
T PF09424_consen 71 DLAEKEQAEIEILEEYLPKQLSEEEIEAIVE 101 (143)
T ss_dssp HHHHHHHHHHHHHGGGS-----HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCcCCCCHHHHHHHHH
Confidence 4555566777778899999999998777664
No 55
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=25.80 E-value=39 Score=25.09 Aligned_cols=30 Identities=13% Similarity=0.356 Sum_probs=23.4
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhc
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHL 35 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~ 35 (123)
.++...|.+-|..||++++++....|+.+|
T Consensus 182 ~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rs 211 (233)
T PF05496_consen 182 EELAKIVKRSARILNIEIDEDAAEEIARRS 211 (233)
T ss_dssp HHHHHHHHHCCHCTT-EE-HHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHhCCCcCHHHHHHHHHhc
Confidence 467778888888999999988888888877
No 56
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=24.57 E-value=1.5e+02 Score=17.97 Aligned_cols=28 Identities=18% Similarity=0.381 Sum_probs=15.7
Q ss_pred HHHHHHH-HHhhcCCCCCHHHHHHHHHhc
Q psy10123 8 LKSIIQR-TGKFLDHPLSTPDILQLEDHL 35 (123)
Q Consensus 8 ~~~~v~r-ia~Flg~~~~~~~l~~iv~~~ 35 (123)
+...+.. +..++|...+++.++.++...
T Consensus 32 l~~~l~~~~g~~lg~~~s~~ei~~~~~~~ 60 (94)
T cd05031 32 LKKLMEKELSEFLKNQKDPMAVDKIMKDL 60 (94)
T ss_pred HHHHHHHHhHHHhhccccHHHHHHHHHHh
Confidence 3344443 344566666777666666544
No 57
>PF08546 ApbA_C: Ketopantoate reductase PanE/ApbA C terminal; InterPro: IPR013752 This is the C-terminal domain of 2-dehydropantoate 2-reductases also known as ketopantoate reductases, 1.1.1.169 from EC. The reaction catalysed by this enzyme is: (R)-pantoate + NADP(+) = 2-dehydropantoate + NADPH. AbpA catalyses the NADPH reduction of ketopantoic acid to pantoic acid in the alternative pyrimidine biosynthetic (APB) pathway []. ApbA and PanE are allelic []. ApbA, the ketopantoate reductase enzyme is required for the synthesis of thiamine via the APB biosynthetic pathway []. ; GO: 0016491 oxidoreductase activity, 0050661 NADP binding, 0055114 oxidation-reduction process; PDB: 1YJQ_A 1KS9_A 2OFP_A 1YON_A 2EW2_B 3EGO_B 3HN2_D 3GHY_B 3G17_E 3HWR_B ....
Probab=23.97 E-value=1.9e+02 Score=18.33 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=21.3
Q ss_pred hhhHhHHHHHHHHHhhcCCCCCHHHHHHHH
Q psy10123 3 SVHQDLKSIIQRTGKFLDHPLSTPDILQLE 32 (123)
Q Consensus 3 dlk~d~~~~v~ria~Flg~~~~~~~l~~iv 32 (123)
++.+.+..++..||+-+|++++++.+...+
T Consensus 38 ~~~~~l~~E~~~va~a~G~~l~~~~~~~~~ 67 (125)
T PF08546_consen 38 ELIRALMREVIAVARALGIPLDPDDLEEAI 67 (125)
T ss_dssp HHHHHHHHHHHHHHHHTTSS--HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhccCcHHHHHHHH
Confidence 466777888999999999999887544333
No 58
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=23.90 E-value=1.6e+02 Score=16.98 Aligned_cols=32 Identities=22% Similarity=0.255 Sum_probs=22.3
Q ss_pred hhhHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 3 SVHQDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 3 dlk~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
.+-+.+....+++|..|| +++..++.+-....
T Consensus 4 ~ia~~lg~~W~~la~~Lg--l~~~~I~~i~~~~~ 35 (79)
T cd01670 4 KLAKKLGKDWKKLARKLG--LSDGEIDQIEEDNP 35 (79)
T ss_pred HHHHHHhhHHHHHHHHhC--CCHHHHHHHHHhCC
Confidence 344555677788888888 66777777766654
No 59
>PRK08727 hypothetical protein; Validated
Probab=23.84 E-value=1.7e+02 Score=21.15 Aligned_cols=31 Identities=13% Similarity=0.047 Sum_probs=25.0
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
++....+++.|..-|..++++.++-++++++
T Consensus 165 e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~ 195 (233)
T PRK08727 165 VARAAVLRERAQRRGLALDEAAIDWLLTHGE 195 (233)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHhCC
Confidence 3456667777877789999999999999986
No 60
>PRK08084 DNA replication initiation factor; Provisional
Probab=23.78 E-value=1.6e+02 Score=21.20 Aligned_cols=30 Identities=13% Similarity=0.021 Sum_probs=24.3
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 7 DLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 7 d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
+....+.+.|.--|..++++.++-++++++
T Consensus 171 ~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~ 200 (235)
T PRK08084 171 EKLQALQLRARLRGFELPEDVGRFLLKRLD 200 (235)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHhhc
Confidence 455667776777799999999999999885
No 61
>KOG0028|consensus
Probab=23.59 E-value=1.4e+02 Score=21.17 Aligned_cols=29 Identities=14% Similarity=0.305 Sum_probs=21.0
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHhcChH
Q psy10123 10 SIIQRTGKFLDHPLSTPDILQLEDHLSFE 38 (123)
Q Consensus 10 ~~v~ria~Flg~~~~~~~l~~iv~~~sfe 38 (123)
..+.+||.=||.+++++.+...++..+-+
T Consensus 126 ~~lkrvakeLgenltD~El~eMIeEAd~d 154 (172)
T KOG0028|consen 126 RNLKRVAKELGENLTDEELMEMIEEADRD 154 (172)
T ss_pred HHHHHHHHHhCccccHHHHHHHHHHhccc
Confidence 35677888888888888877777666544
No 62
>cd02417 Peptidase_C39_likeA A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this
Probab=23.59 E-value=1.8e+02 Score=17.98 Aligned_cols=35 Identities=0% Similarity=-0.140 Sum_probs=25.7
Q ss_pred HHHHHHHHHhhcCCCCCHHHHHHHHH----hcChHHHhh
Q psy10123 8 LKSIIQRTGKFLDHPLSTPDILQLED----HLSFESMKE 42 (123)
Q Consensus 8 ~~~~v~ria~Flg~~~~~~~l~~iv~----~~sfe~Mk~ 42 (123)
...++.-+|++.|.+++.+.+...+. ..++..|..
T Consensus 8 ~l~~l~~i~~~~g~~~~~~~l~~~~~~~~~~~~~~~l~~ 46 (121)
T cd02417 8 GLLALVLLARYHGIAADPEQLRHEFGLAGEPFNSTELLL 46 (121)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHhcCCCCCCCHHHHHH
Confidence 35567889999999999998887654 345555554
No 63
>PF12728 HTH_17: Helix-turn-helix domain
Probab=23.36 E-value=65 Score=17.16 Aligned_cols=25 Identities=8% Similarity=0.161 Sum_probs=14.5
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHhcChH
Q psy10123 12 IQRTGKFLDHPLSTPDILQLEDHLSFE 38 (123)
Q Consensus 12 v~ria~Flg~~~~~~~l~~iv~~~sfe 38 (123)
+..+|++||+ +...+...+..-.|.
T Consensus 4 ~~e~a~~l~i--s~~tv~~~~~~g~i~ 28 (51)
T PF12728_consen 4 VKEAAELLGI--SRSTVYRWIRQGKIP 28 (51)
T ss_pred HHHHHHHHCc--CHHHHHHHHHcCCCC
Confidence 5677888885 444455555444333
No 64
>PLN03025 replication factor C subunit; Provisional
Probab=23.16 E-value=1.7e+02 Score=22.17 Aligned_cols=36 Identities=8% Similarity=0.086 Sum_probs=28.9
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhh
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKE 42 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~ 42 (123)
.+....+.++|+--|+.++++.++.+++++. ..|+.
T Consensus 161 ~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~-gDlR~ 196 (319)
T PLN03025 161 QEILGRLMKVVEAEKVPYVPEGLEAIIFTAD-GDMRQ 196 (319)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHH
Confidence 4567778889998999999999999999887 34443
No 65
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=23.09 E-value=1.2e+02 Score=23.80 Aligned_cols=32 Identities=0% Similarity=-0.093 Sum_probs=24.7
Q ss_pred hHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 5 HQDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 5 k~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
++.+...+..+-++.|.++|++.|.++++..+
T Consensus 137 ~~el~~l~~~LE~~~G~~i~~e~L~~ai~~~n 168 (377)
T TIGR03190 137 YAEVQRFRVFLQTLTGKEITDDMLRDALAVCD 168 (377)
T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence 34556666777788899999999988887764
No 66
>COG4086 Predicted secreted protein [Function unknown]
Probab=22.39 E-value=1.7e+02 Score=22.49 Aligned_cols=37 Identities=14% Similarity=0.284 Sum_probs=29.8
Q ss_pred hhHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcChHHHhh
Q psy10123 4 VHQDLKSIIQRTGKFLDHPLSTPDILQLEDHLSFESMKE 42 (123)
Q Consensus 4 lk~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sfe~Mk~ 42 (123)
=..|.+..|..++.=+|+++++.++..|+. .|-+|++
T Consensus 211 ~~~dirkvv~dv~~~ynvnltd~qvn~i~~--~~~~~~~ 247 (299)
T COG4086 211 DPADIRKVVDDVANNYNVNLTDTQVNQIVN--LFLAMSN 247 (299)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHH--HHHHhhc
Confidence 357889999999999999999999988875 3445554
No 67
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=22.05 E-value=1.3e+02 Score=19.06 Aligned_cols=31 Identities=13% Similarity=0.277 Sum_probs=20.6
Q ss_pred HHHHHHHhhc-----CCCC-----------CHHHHHHHHHhcChHHH
Q psy10123 10 SIIQRTGKFL-----DHPL-----------STPDILQLEDHLSFESM 40 (123)
Q Consensus 10 ~~v~ria~Fl-----g~~~-----------~~~~l~~iv~~~sfe~M 40 (123)
..-.||+.|| |+.+ ++..+++++++|+++-.
T Consensus 12 ~l~~Ki~~fl~lk~~G~~fN~~L~~s~~frNP~i~ekLi~~~~Ide~ 58 (96)
T PF07818_consen 12 ELQAKIAKFLELKRQGIHFNDRLQNSKSFRNPSILEKLIEFFGIDEY 58 (96)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHccccCChHHHHHHHHHcCCCcc
Confidence 3456677776 4444 46678888888888763
No 68
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=21.75 E-value=85 Score=15.54 Aligned_cols=11 Identities=18% Similarity=0.193 Sum_probs=4.9
Q ss_pred CHHHHHHHHHh
Q psy10123 24 STPDILQLEDH 34 (123)
Q Consensus 24 ~~~~l~~iv~~ 34 (123)
+...+..+.+.
T Consensus 38 ~~~~~~~i~~~ 48 (56)
T smart00530 38 SLETLKKLAKA 48 (56)
T ss_pred CHHHHHHHHHH
Confidence 34444444443
No 69
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=21.51 E-value=1e+02 Score=25.55 Aligned_cols=28 Identities=21% Similarity=0.509 Sum_probs=25.5
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHhcChHH
Q psy10123 12 IQRTGKFLDHPLSTPDILQLEDHLSFES 39 (123)
Q Consensus 12 v~ria~Flg~~~~~~~l~~iv~~~sfe~ 39 (123)
..+|.+.||.+++.+.+..+++.+.|+.
T Consensus 281 ~~~i~~~lG~~i~~~~i~~iL~~Lgf~~ 308 (552)
T PRK09616 281 VEYINKLLGIDLSAEEIIELLERMRYDA 308 (552)
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHcCCCc
Confidence 5788899999999999999999999976
No 70
>PF04664 OGFr_N: Opioid growth factor receptor (OGFr) conserved region; InterPro: IPR006757 Opioid peptides act as growth factors in neural and non-neural cells and tissues, in addition to serving in neurotransmission/neuromodulation in the nervous system. The opioid growth factor receptor is an integral membrane protein associated with the nucleus. This conserved domain is situated at the N terminus of the member proteins with a series of imperfect repeats lying immediately to its C-terminal [].; GO: 0004872 receptor activity, 0016020 membrane
Probab=21.15 E-value=40 Score=24.63 Aligned_cols=36 Identities=8% Similarity=0.028 Sum_probs=25.9
Q ss_pred chhhHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcCh
Q psy10123 2 LSVHQDLKSIIQRTGKFLDHPLSTPDILQLEDHLSF 37 (123)
Q Consensus 2 Edlk~d~~~~v~ria~Flg~~~~~~~l~~iv~~~sf 37 (123)
++++..+..++..|.+|.|+.+.++..-.|.....+
T Consensus 79 ~~i~~r~l~s~~lML~FyGi~l~~~~~g~v~~~~~~ 114 (213)
T PF04664_consen 79 PEIQKRLLRSYDLMLDFYGIELVDEETGEVIRAENW 114 (213)
T ss_pred HHHHHHHHHHHHHHHHhcceeeeccccccccchhhH
Confidence 467778889999999999999876444444444433
No 71
>PRK09744 DNA-binding transcriptional regulator DicC; Provisional
Probab=20.87 E-value=50 Score=20.11 Aligned_cols=15 Identities=7% Similarity=-0.139 Sum_probs=12.5
Q ss_pred HHHHHHHHhhcCCCC
Q psy10123 9 KSIIQRTGKFLDHPL 23 (123)
Q Consensus 9 ~~~v~ria~Flg~~~ 23 (123)
-+.+.++|.+||++.
T Consensus 10 FGs~~kvA~aLGIs~ 24 (75)
T PRK09744 10 FGSKTKLANAAGVRL 24 (75)
T ss_pred hCcHHHHHHHHCCCH
Confidence 366899999999984
No 72
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=20.74 E-value=37 Score=18.28 Aligned_cols=10 Identities=10% Similarity=0.192 Sum_probs=4.2
Q ss_pred CHHHHHHHHH
Q psy10123 24 STPDILQLED 33 (123)
Q Consensus 24 ~~~~l~~iv~ 33 (123)
+.+.+.++.+
T Consensus 37 ~~~~~~~ia~ 46 (55)
T PF01381_consen 37 SLDTLKKIAK 46 (55)
T ss_dssp BHHHHHHHHH
T ss_pred CHHHHHHHHH
Confidence 3444444433
No 73
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=20.60 E-value=1.3e+02 Score=17.42 Aligned_cols=38 Identities=11% Similarity=0.205 Sum_probs=15.0
Q ss_pred hhhHhHHHHHHHHHhhc---CCCCCHHHHHHHHHhcChHHH
Q psy10123 3 SVHQDLKSIIQRTGKFL---DHPLSTPDILQLEDHLSFESM 40 (123)
Q Consensus 3 dlk~d~~~~v~ria~Fl---g~~~~~~~l~~iv~~~sfe~M 40 (123)
+|-.-....+.-|.+|+ |.+.+-.++...+.-.|-.+.
T Consensus 3 ~LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv 43 (65)
T PF01726_consen 3 ELTERQKEVLEFIREYIEENGYPPTVREIAEALGLKSTSTV 43 (65)
T ss_dssp ---HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHH
Confidence 34444445555555555 344444444444444443333
No 74
>PF09098 Dehyd-heme_bind: Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; InterPro: IPR015182 Quinohemoprotein amine dehydrogenases (QHNDH) 1.4.99 from EC) are enzymes produced in the periplasmic space of certain Gram-negative bacteria, such as Paracoccus denitrificans and Pseudomonas putida, in response to primary amines, including n-butylamine and benzylamine. QHNDH catalyses the oxidative deamination of a wide range of aliphatic and aromatic amines through formation of a Schiff-base intermediate involving one of the quinone O atoms []. Catalysis requires the presence of a novel redox cofactor, cysteine tryptophylquinone (CTQ). CTQ is derived from the post-translational modification of specific residues, which involves the oxidation of the indole ring of a tryptophan residue to form tryptophylquinone, followed by covalent cross-linking with a cysteine residue []. There is one CTQ per subunit in QHNDH. In addition to CTQ, two haem c cofactors are present in QHNDH that mediate the transfer of the substrate-derived electrons from CTQ to an external electron acceptor, cytochrome c-550 [, ]. QHNDH is a heterotrimer of alpha, beta and gamma subunits. The alpha and beta subunits contain signal peptides necessary for the translocation of QHNDH to the periplasm. The alpha subunit is composed of four domains - domain 1 forming a dihaem cytochrome, and domains 2-4 forming antiparallel beta-barrel structures; the beta subunit is a 7-bladed beta-propeller that provides part of the active site; and the small, catalytic gamma subunit contains the novel cross-linked CTQ cofactor, in addition to additional thioester cross-links between Cys and Asp/Glu residues that encage CTQ. The gamma subunit assumes a globular secondary structure with two short alpha-helices having many turns and bends []. This entry represents the dihaem cytochrome c domain of the QHNDH alpha subunit. The domain contain two cysteine residues that are involved in thioether linkages to haem []. ; PDB: 1PBY_A 1JJU_A 1JMZ_A 1JMX_A.
Probab=20.33 E-value=1.1e+02 Score=21.65 Aligned_cols=27 Identities=15% Similarity=0.226 Sum_probs=18.5
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 10 SIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 10 ~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
.+|.|+...-|.+++++....||+.++
T Consensus 38 mTV~RM~~~hGl~Is~eer~avVkYLA 64 (167)
T PF09098_consen 38 MTVKRMQRVHGLPISPEERRAVVKYLA 64 (167)
T ss_dssp HHHHHHHHHC-----HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 478899999999999999999988763
No 75
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=20.07 E-value=1.5e+02 Score=23.30 Aligned_cols=32 Identities=6% Similarity=0.094 Sum_probs=24.2
Q ss_pred hHhHHHHHHHHHhhcCCCCCHHHHHHHHHhcC
Q psy10123 5 HQDLKSIIQRTGKFLDHPLSTPDILQLEDHLS 36 (123)
Q Consensus 5 k~d~~~~v~ria~Flg~~~~~~~l~~iv~~~s 36 (123)
+..+..-+..+-+++|++++++.|++.++..+
T Consensus 141 ~~el~~l~~~LE~~~G~~it~e~L~~aI~~~N 172 (380)
T TIGR02263 141 TAELNELCEGLEHLSGKKITDDAIRASIAVFN 172 (380)
T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence 44455666777778899999999888877664
No 76
>PF05269 Phage_CII: Bacteriophage CII protein; InterPro: IPR007933 The CII protein is a transcription activator, conserved in bacteriophage lambda and related phages, that plays a key role in the decision between lytic or lysogenic phage development. CII is regulated at multiple levels including transcription, translation initiation, mRNA stability, and proteolysis []. Conditions that stabilise cII favour lysogenic development. The lambda CII protein activates three specific promoters, binding to direct repeat sequences rather than the more usual inverted repeats. Structurally, CII is a homotetramer where each monomer is composed of four alpha helices and a disordered C terminus [, ]. The alpha helical region is responsible for DNA binding and multimerisation. The homotetramer has an unusual spatial arrangement that allows recognition of the direct repeat sequences.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1ZS4_C 1ZPQ_C 1XWR_A.
Probab=20.04 E-value=1.6e+02 Score=18.52 Aligned_cols=25 Identities=12% Similarity=0.111 Sum_probs=10.6
Q ss_pred HhHHHHHHHHHhhcCCCCCHHHHHH
Q psy10123 6 QDLKSIIQRTGKFLDHPLSTPDILQ 30 (123)
Q Consensus 6 ~d~~~~v~ria~Flg~~~~~~~l~~ 30 (123)
.|....+-.+.+.||..+.++.+.+
T Consensus 45 ~~~~~~~a~lLa~L~~~v~~~~i~~ 69 (91)
T PF05269_consen 45 NDFIEKMAMLLAALELGVEDSEIAR 69 (91)
T ss_dssp HHHHHHHHHHHHHTTTTHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHhcccccHHHH
Confidence 3333444444444444444443333
Done!